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Solar salterns and salt marshes are unique ecosystems with special physicochemical features and characteristic biota. Currently, there are very few studies focused on the impacts of pollution on these economic and ecological systems. Unfortunately, diversified pollution (metals, Polycyclic Aromatic Hydrocarbons, etc.) has been detected in these complex ecosystems. These hypersaline environments are under increasing threat due to anthropogenic pressures. Despite this, they represent a valuable source of microbial diversity, with taxa displaying special features in terms of environmental remediation capacities as well as economical species such as Artemia spp. (Branchiopoda) and Dunaliella salina (Chlorophyta). In this review, we discuss the impacts of pollution on these semi-artificial systems. Therefore, we have indicated the sentinel species identified in plankton communities, which can be used in ecotoxicological investigations in solar salterns. In future, researchers should increase their interest in pollution assessment in solar salterns and salt marshes.